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RaverJay / CholerAegon

Pipeline for assembly and antimicrobial resistance gene detection
GNU General Public License v3.0
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Missing fromPath Parameter #4

Closed luis-laurindo closed 10 months ago

luis-laurindo commented 10 months ago

Please help me, I am trying to run paired end: (base) osvaldo@osvaldo-ThinkPad-L13-Yoga-Gen-2:$ conda activate choleraegon (choleraegon) osvaldo@osvaldo-ThinkPad-L13-Yoga-Gen-2:$ nextflow run RaverJay/CholerAegon -r 0.2.0 -profile local,singularity --shortreads '/home/osvaldo/Chol*.fastq' --genome_reference /home/osvaldo/Chol/ref.fasta --output /home/osvaldo/Chol/Results N E X T F L O W ~ version 23.10.0 Launching https://github.com/RaverJay/CholerAegon [confident_bernard] DSL2 - revision: https://github.com/RaverJay/CholerAegon/commit/47a7e4cd2244c2bdb8b8894f4d5e99f6f44cec11 [0.2.0] Missing fromPath parameter (choleraegon) osvaldo@osvaldo-ThinkPad-L13-Yoga-Gen-2:~$

RaverJay commented 10 months ago

Hi, just released a new version that finally fixes the --shortreads option

Please check the updated README and try again

luis-laurindo commented 10 months ago

Thank you so much, it worked just fine.